This project aims to elucidate the molecular response of hardwood tree seedlings to varying levels of ozone concentration. Ozone pollution places environmental stress on forest trees resulting in early leaf senescence and loss of photosynthetic capacity.
MiSeq reads from seven libraries were cleaned with Trimmomatic and assembled by Trinity. CD-hit with parameter -c 0.95 was used to collapse highly similar reads into a single sequence. Protein sequences were predicted using Trinity.

Read Statistics

RNA was sampled from leaves of seedlings exposed to ozone levels (control, 80ppm, 125ppm, or 225ppm) for 7 hours and 14 days. Raw data is being uploaded to the NCBI Short Read Archive. Links will be added when they are available.

Library Description

MiSeq Reads

MiSeq Bases

14Day 125ppb

682,722

93,967,711

14Day 225ppb

340,810

47,948,411

14Day 225ppb

340,810

47,995,569

14Day 80ppb

731,463

97,514,441

14Day 80ppb

731,463

97,648,782

14Day control

785,027

106,569,437

14Day control

785,027

106,703,869

7hr 125ppb

1,139,738

159,465,574

7hr 125ppb

1,139,738

159,633,857

7hr 225ppb

2,670

340,408

7hr 225ppb

2,670

341,766

7hr 80ppb

1,073,063

148,872,614

7hr 80ppb

1,073,063

149,052,856

7hr control

1,023,282

142,480,844

7hr control

1,023,282

142,646,177

TOTAL

11,557,550

1,595,033,658

In addition to the miSeq reads from the ozone experiments, two other sources of transcripts were used for the assembly. 2.3 million 454 reads from the ancestral genome project and 24,663 reads from the EST division of NCBI.